Detailed view for PF3D7_1362400

Basic information

TDR Targets ID: 228
Plasmodium falciparum, calpain
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 9.077 | Length (AA): 2048 | MW (Da): 242552 | Paralog Number: 0

Signal peptide: N | GPI Anchor: N | Predicted trans-membrane segments: 0

Druggability Group : DG4

Targets have been classified into druggability groups (DG) according to their druggability score in network driven prioritizations. DGs range from 1 to 5; the higher the group number, the higher the chance of the target to be druggable

Pfam domains

PF00648   Calpain family cysteine protease

Gene Ontology

Mouse over links to read term descriptions.
GO:0005622   intracellular  
GO:0004198   calcium-dependent cysteine-type endopeptidase activity  
GO:0006508   proteolysis  

Metabolic Pathways

This gene is not mapped to any metabolic pathway in KEGG.

Structural information

Modbase 3D models:

There are 19 models calculated for this protein. More info on these models, including the models themselves is available at: Modbase

Target Beg Target End Template Template Beg Template End Identity Evalue Model Score MPQS zDope
1310 1468 2g8j (A) 200 351 27.00 0.0000011 0.93 0.26 0.27
1347 1468 1mdw (A) 228 341 32.00 0.0000077 0.92 0.33 -0.47
2 748 3v0a (B) 376 1143 22.00 0.000067 0.88 0.345746 1.63
4 183 4ilo (A) 14 187 16.00 0.81 0.03 0.220291 -0.42
18 210 4uos (A) 2 184 13.00 0.087 0.05 0.262638 -1.26
23 912 3vuo (A) 300 1184 21.00 0.88 0.97 0.29457 1.93
118 880 3s5h (A) 118 1014 23.00 0.016 0.7 0.233559 1.75
489 765 4o87 (A) 99 310 31.00 0.028 0.19 -0.0457461 1.56
741 859 4ll8 (E) 57 173 22.00 0.43 0 0.230805 -0.48
1346 1468 2nqa (A) 223 341 34.00 0.00011 0.89 0.388059 -0.53
1347 1523 3bow (A) 228 401 27.00 0.00019 1 0.154426 1.08
1739 1860 2qfe (A) 681 803 25.00 0 1 0.42027 -0.36
56 296 2vse (A) 252 547 30.00 0.07 0.03 -0.0389051 1.88
149 636 2vk9 (A) 24 518 24.00 0.27 0.86 0.18695 1.37
695 813 4ll8 (E) 57 175 20.00 0.93 0.01 0.352607 -1.2
1322 1444 2nqa (A) 223 341 34.00 0.0001 0.89 0.389881 -0.53
1323 1499 3bow (A) 228 401 27.00 0.00019 1 0.156521 1.08
1718 1839 2qfe (A) 681 803 25.00 0 1 0.419087 -0.36
1881 2017 1gjy (A) 70 196 10.00 0.000000015 0.03 -0.0503124 0.63

Help me make sense of these data.

Target Beg: first modeled residue
Target End: last modeled residue
Template: template structure used for modelling (PDB accession and chain)
Template Beg: first template residue in target-template alignment
Template End: last template residue in target-template alignment
Identity: sequence identity
Evalue: E value for target-template hit
Model Score: GA341 score (>0.7 for reliable model)
MPQS: ModPipe Quality Score (>1.1 for reliable model)
zDope: zDope Score (negative for reliable model)

A more detailed description of these scores is available at the Modbase Model Evaluation Help Pages, and in the papers referenced therein.

PDB Structures:

No structure availble in the PDB for this protein

Expression

Upregulation Percent Ranking Stage Dataset
Upper 80-100% percentile merozoite, Female Gametocyte. PlasmoDB Lasonder E
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intra-erythrocytic - 0 hs, intra-erythrocytic - 8 hs, intra-erythrocytic - 16 hs, Ring, Male Gametocyte. Otto TD Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile intra-erythrocytic - 24 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, gametocyte, late ring. Otto TD PlasmoDB
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile intra-erythrocytic - 32 hs, early schizont, early trophozoite, late trophozoite, Oocyst, Sporozoite. Otto TD PlasmoDB Zanghi G
Show/Hide expression data references
  • Zanghi G A Specific PfEMP1 Is Expressed in P. falciparum Sporozoites and Plays a Role in Hepatocyte Infection.
  • Otto TD New insights into the blood-stage transcriptome of Plasmodium falciparum using RNA-Seq.
  • Lasonder E Integrated transcriptomic and proteomic analyses of P. falciparum gametocytes. Molecular insight into sex-specific processes and translational repression.
  • PlasmoDB Data on upregulation of P. falciparum genes in different life cycle stages, combined from several microarray experiments available in PlasmoDB

Orthologs

Ortholog group members (OG5_128932)

Species Accession Gene Product
Babesia bovis BBOV_III007670   calpain family cysteine protease domain containing protein
Brugia malayi Bm1_14050   calpain 7
Candida albicans CaO19.3995   similar to Aspergillus calpain-like protease PalBory involved in sporulation
Candida albicans CaO19.11478   similar to Aspergillus calpain-like protease PalBory involved in sporulation
Caenorhabditis elegans CELE_T04A8.16   Protein CLP-2
Cryptosporidium hominis Chro.80156   hypothetical protein
Cryptosporidium parvum cgd8_1320   calpain like thiol protease
Echinococcus granulosus EgrG_001000650   calpain 7 C02 family
Echinococcus multilocularis EmuJ_001000650   calpain 7 (C02 family)
Homo sapiens ENSG00000131375   calpain 7
Leishmania braziliensis LbrM.33.2290   calpain protease-like protein
Leishmania donovani LdBPK_332130.1   calpain protease-like protein
Leishmania infantum LinJ.33.2130   calpain protease-like protein
Leishmania major LmjF.33.2010   calpain protease-like protein
Leishmania mexicana LmxM.32.2010   calpain protease-like protein
Loa Loa (eye worm) LOAG_11530   calpain
Mus musculus ENSMUSG00000021893   calpain 7
Neospora caninum NCLIV_000790   hypothetical protein
Plasmodium berghei PBANKA_1138400   calpain, putative
Plasmodium falciparum PF3D7_1362400   calpain
Plasmodium knowlesi PKNH_1108900   calpain, putative
Plasmodium vivax PVX_115075   calpain, putative
Plasmodium yoelii PY00976   Capn7-related
Saccharomyces cerevisiae YMR154C   Rim13p
Schistosoma japonicum Sjp_0206230   Probable ubiquitin carboxyl-terminal hydrolase R10E11.3, putative
Schistosoma japonicum Sjp_0035290   ko:K08576 calpain-7, putative
Schistosoma mansoni Smp_083530.1   calpain-7 (C02 family)
Schistosoma mansoni Smp_083530.2   calpain-7 (C02 family)
Schmidtea mediterranea mk4.007205.03  
Schmidtea mediterranea mk4.015113.02  
Schmidtea mediterranea mk4.008769.01   Calpain-7
Schmidtea mediterranea mk4.015113.00   Calpain-7
Trypanosoma brucei gambiense Tbg972.11.5280   calpain-like protein, putative
Trypanosoma brucei Tb927.11.4640   calpain-like protein, putative
Trypanosoma brucei Tb427tmp.02.2240   calpain-like protein, putative
Trypanosoma congolense TcIL3000.11.4720   calpain-like protein, putative
Trypanosoma cruzi TcCLB.511847.10   calpain-like cysteine peptidase, putative
Trypanosoma cruzi TcCLB.506227.130   calpain-like cysteine peptidase, putative
Toxoplasma gondii TGME49_293820   calpain family cysteine protease domain-containing protein
Theileria parva TP04_0664   hypothetical protein

Essentiality

PF3D7_1362400 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb11.02.2240 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb11.02.2240 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb11.02.2240 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb11.02.2240 Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
PBANKA_1138400 Plasmodium berghei Essential plasmo
TGME49_293820 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • sidik A Genome-wide CRISPR Screen in Toxoplasma Identifies Essential Apicomplexan Genes. Sidik, Saima M., et al. "A genome-wide CRISPR screen in toxoplasma identifies essential apicomplexan genes." Cell 166.6 (2016): 1423-1435.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • goodall The Essential Genome of Escherichia coli K-12 (Transposon directed high-throughput mutagenesis) Goodall, Emily CA, et al. "The essential genome of Escherichia coli K-12." mBio 9.1 (2018): e02096-17.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • plasmo Functional Profiling of a Plasmodium Genome Reveals an Abundance of Essential Genes. Bushell, Ellen, et al. "Functional profiling of a Plasmodium genome reveals an abundance of essential genes." Cell 170.2 (2017): 260-272.

Phenotypes and Validation (curated)

We have no manually annotated phenotypes for this target. What does this mean? / Care to help?

In TDR Targets, information about phenotypes that are caused by drugs, or by genetic manipulation of cells (e.g. gene knockouts or knockdowns) is manually curated from the literature. These descriptions help to describe the potential of the target for drug development. If no information is available for this gene or if the information is incomplete, this may mean that i) the papers containing this information either appeared after the curation effort for this organism was carried out or they were inadvertently missed by curators; or that ii) the curation effort for this organism has not yet started.

In any case, if you have information about papers containing relevant validation data for this target, please contact us.

Annotated validation

No validation data for this target

Associated compounds / Druggability

Druggability index (range: 0 to 1): 0.3

Known modulators for this target

No chemical compounds associated to this gene

Predicted associations

By orthology with druggable targets
Species Known druggable target Linked compounds Reference
Leishmania major calpain protease-like protein Compounds References
By sequence similarity to non orthologous druggable targets
No additional associated druggable targets
Obtained from network model

Ranking Plot

Putative Drugs List

Compound Raw Global Species
0.0549 0.2609 1
0.0578 0.2609 1
0.0259 0.27 0.7345
0.0279 0.2694 0.4355
0.0242 0.2738 0.4392
0.0292 0.2919 0.7594
0.0578 0.2609 1
0.0492 0.2609 1
0.0578 0.2609 1
0.0244 0.2627 0.6848
0.024 0.2648 0.6918
0.0291 0.3007 0.5448
0.0549 0.2609 1
0.0231 0.2723 0.4379
0.0258 0.2568 0.6833
0.0282 0.2694 0.4355
0.023 0.2531 0.4415
0.0244 0.2738 0.4392
0.0186 0.2789 0.4468
0.024 0.2564 0.6468
0.0239 0.2738 0.4392
0.0269 0.2639 0.4355
0.0517 0.2609 1
0.0238 0.2643 0.6918
0.0269 0.2639 0.4355
0.03 0.2879 0.6642
0.0278 0.2627 0.6848
0.0281 0.2643 0.6918
0.0282 0.2743 0.4415
0.03 0.2879 0.6642
0.0234 0.2643 0.6918
0.03 0.2649 0.7324
0.0294 0.2831 0.5512
0.0232 0.2648 0.6918
0.0232 0.2648 0.6918
0.03 0.2879 0.6642
0.0279 0.27 0.6257
0.0232 0.2643 0.6918
0.0261 0.285 0.5086
0.0265 0.2648 0.5742
0.0239 0.2643 0.6918
0.0247 0.2732 0.7345
0.0233 0.2694 0.4355
0.024 0.2564 0.6468
0.0521 0.2609 1
0.0269 0.2596 0.4355
0.0545 0.2609 1
0.0238 0.2643 0.6918
0.0265 0.266 0.6937
0.0281 0.2627 0.6848
0.0184 0.2631 1
0.0521 0.2609 1
0.024 0.2627 0.6848
0.0248 0.2729 0.4393
0.0282 0.2743 0.4415
0.0276 0.2505 1
0.0184 0.2631 1
0.0545 0.2609 1
0.0574 0.2609 1
0.0245 0.267 0.7345
0.0276 0.2505 1
0.0244 0.2627 0.6848
0.0253 0.2561 0.6833
0.0279 0.2738 0.4403
0.0259 0.2677 0.6886
0.0239 0.256 0.5656
0.0545 0.2609 1
0.0574 0.2598 1
0.058 0.2626 1
0.025 0.2677 0.7345
0.0282 0.2743 0.4415
0.0284 0.2694 0.4355
0.0284 0.2694 0.4355
0.0545 0.2609 1
0.0238 0.2643 0.6918
0.0184 0.261 1
0.027 0.2643 0.6918
0.0238 0.2643 0.6918
0.0281 0.2627 0.6848
0.0266 0.2738 0.4393
0.0233 0.2694 0.4355
0.0235 0.2729 0.4392
0.026 0.2643 0.6918
0.0287 0.2569 1
0.0517 0.2609 1
0.0233 0.2729 0.4392
0.0251 0.2627 0.6848
0.0259 0.2561 0.6833
0.0574 0.2626 1
0.0247 0.2627 0.6848
0.0536004 0.2528 1
0.0284 0.2643 0.6918
0.013 0.2598 0.8739
0.0256 0.2696 0.7345
0.0233 0.2558 0.6266
0.0247 0.2643 0.6918
0.0265 0.2627 0.6848
0.0244 0.2627 0.6848
0.0248 0.27 0.7345
0.027 0.2696 0.4385
0.0261 0.2677 0.4355
0.0235 0.2729 0.4392
0.0256 0.2643 0.6918
0.0263 0.2697 0.7345
0.0574 0.2626 1
0.023 0.2643 0.6918
0.0279 0.2694 0.4355
0.028 0.2698 0.7345
0.0492 0.2609 1
0.0272 0.2728 0.7345
0.0574 0.2609 1
0.0253 0.2677 0.7345
0.023 0.2643 0.6918
0.0257 0.2568 0.6833
0.0232 0.2655 0.9315
0.0275 0.2643 0.6918
0.0456536 0.252923 0.543833
0.0276 0.2693 0.4355
0.0549 0.2609 1
0.0277 0.2694 0.4355
0.0261 0.2738 0.4393
0.0233 0.2568 0.6833
0.025 0.2738 0.4393
0.026 0.2627 0.6848
0.0247 0.2643 0.6918
0.0281 0.2627 0.6848
0.0287 0.2689 1
0.0256 0.2643 0.6918
0.026 0.2598 1
0.0291 0.3007 0.5448
0.0246 0.2721 0.4392
0.0456536 0.252923 0.543833
0.0415 0.2609 1
0.0291 0.3007 0.5448
0.026 0.2627 0.6848
0.0245 0.2591 0.7244
0.0261 0.285 0.5086
0.0521 0.2609 1
0.0258 0.2788 0.5932

Assayability

Assay information

No assay information for this target.

Reagent availability

No reagent availability information for this target.

Bibliographic References

No literature references available for this target.

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User comments

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Gene identifier PF3D7_1362400 (Plasmodium falciparum), calpain
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